MmuINT0027843 @ mm9
Intron Retention
Gene
ENSMUSG00000021991 | Cacna2d3
Description
calcium channel, voltage-dependent, alpha2/delta subunit 3 [Source:MGI Symbol;Acc:MGI:1338890]
Coordinates
chr14:29721174-29721584:-
Coord C1 exon
chr14:29721470-29721584
Coord A exon
chr14:29721255-29721469
Coord C2 exon
chr14:29721174-29721254
Length
215 bp
Sequences
Splice sites
5' ss Seq
TATATCCTT
5' ss Score
-24.41
3' ss Seq
GCCTTAACTACAGTCAACATAAT
3' ss Score
-11.57
Exon sequences
Seq C1 exon
GTCCTTCGTCATCCAGCAAATCCCGAGTAGCAATCTGTTCATGGTGGTGGTGGACAGTAGCTGTCTCTGTGAGTCCGTGGCTCCTATAACCATGGCACCCATTGAAATCAGGTAT
Seq A exon
ATCCTTTTGTGTGTGGGTCCAGCCACTATGGCTGCCACTGGTAAAGGGGGAGCAACTGTAAGTCCACTGGAGGGAGACATGTCAGAGGGAAAGGTTCCATTGTTTACCTGCATCCAGAGGGAAGTGGTTGAGATACTTTAGTGCCAAGTTTTGACCCCTGAAATTCAGAATGAGAGAAGTCATTGTCAGAAGCACGCCTTAACTACAGTCAACAT
Seq C2 exon
AATGAATCCCTTAAGTGTGAACGGTTAAAGGCTCAGAAGATCAGACGACGTCCAGAATCCTGCCACGGCTTCCATCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021991-Cacna2d3:NM_009785:36
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.037
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTTCGTCATCCAGCAAATC
R:
CTCAGGATGGAAGCCGTGG
Band lengths:
196-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: